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Crystal structure of the engineered beta-1,3-1,4-endoglucanase H(A16-M) in complex with beta-glucan tetrasaccharide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YAH PDB ENTRY 2YAH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 293 25% (v/v) PEG Monomethyl Ether 550, 0.01 M Zinc Sulfate heptahydrate, 0.1 M MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.72 54.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.769 α = 90 b = 88.758 β = 90 c = 154.795 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH MIRRORS 2000-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B EMBL/DESY, HAMBURG BW7B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.64 34.46 92.5 0.057 118568 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.64 1.65 84
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2YAH 1.64 34.46 118568 118568 8310 92.5 0.164 0.161 0.1744 0.197 0.2079 RANDOM 15.88
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.36 -0.08 0.44
RMS Deviations Key Refinement Restraint Deviation p_singtor_nbd 5.115 p_scangle_it 1.901 p_mcangle_it 1.685 p_angle_d 1.659 p_scbond_it 1.252 p_mcbond_it 1.088 p_chiral_restr 0.153 p_bond_d 0.012 p_plane_restr 0.006 p_angle_deg
RMS Deviations Key Refinement Restraint Deviation p_singtor_nbd 5.115 p_scangle_it 1.901 p_mcangle_it 1.685 p_angle_d 1.659 p_scbond_it 1.252 p_mcbond_it 1.088 p_chiral_restr 0.153 p_bond_d 0.012 p_plane_restr 0.006 p_angle_deg p_planar_d p_hb_or_metal_coord p_multtor_nbd p_xhyhbond_nbd p_xyhbond_nbd p_planar_tor p_staggered_tor p_orthonormal_tor p_transverse_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6788 Nucleic Acid Atoms Solvent Atoms 1596 Heterogen Atoms 187
Software Software Software Name Purpose DENZO data reduction TRUNCATE data reduction AMoRE phasing REFMAC refinement CCP4 data scaling